Dynamic report for checking simulation design (4.5)

True mean Progression Free Time (PFT)

     Enzalutamide Abiraterone Carboplatin Cabazitaxel Docetaxel
----         7.11        7.11        6.26        7.11      7.11
---+         7.11        7.11        6.26        7.11      7.11
--+-         7.11        7.11        6.26        7.11      7.11
--++         7.11        7.11        6.26        7.11      7.11
-+--         7.11        7.11       17.01        7.11      7.11
-+-+         7.11        7.11       17.01        7.11      7.11
-++-         7.11        7.11       17.01        7.11      7.11
-+++         7.11        7.11       17.01        7.11      7.11
+---         7.11        7.11        6.26        7.11      7.11
+--+         7.11        7.11        6.26        7.11      7.11
+-+-         7.11        7.11        6.26        7.11      7.11
+-++         7.11        7.11        6.26        7.11      7.11
++--         7.11        7.11       17.01        7.11      7.11
++-+         7.11        7.11       17.01        7.11      7.11
+++-         7.11        7.11       17.01        7.11      7.11


Graduation output

$superiority
            Enzalutamide Abiraterone Carboplatin Cabazitaxel Docetaxel
all                    0           0           0           0         0
TP53- & AR-            0           0           0           0         0
TP53+                  0           0           0           0         0
DRD+                   0           0           1           0         0
TEfus+                 0           0           0           0         0

$inferiority
            Enzalutamide Abiraterone Carboplatin Cabazitaxel Docetaxel
all                    0           0           0           0         0
TP53- & AR-            0           0           0           0         0
TP53+                  0           0           0           0         0
DRD+                   0           0           0           0         0
TEfus+                 0           0           0           0         0


Final probability of superioriry by signatures and biomarkers subtypes

$p_sign
            Enzalutamide Abiraterone Carboplatin Cabazitaxel Docetaxel
all                 0.70        0.64        0.98        0.73      0.61
TP53- & AR-         0.57        0.33        0.62        0.82      0.61
TP53+               0.78        0.82        0.97        0.74      0.67
DRD+                0.82        0.52        1.00        0.82      0.72
TEfus+              0.33        0.61        0.73        0.50      0.44

$p_type
     Enzalutamide Abiraterone Carboplatin Cabazitaxel Docetaxel
----         0.77        0.21        0.08        0.80      0.72
---+         0.21        0.53        0.27        0.39      0.22
--+-         0.52        0.36        0.10        0.39      0.18
--++         0.37        0.80        0.40        0.29      0.49
-+--         0.92        0.68        0.82        0.90      0.74
-+-+         0.36        0.23        0.77        0.66      0.61
-++-         0.72        0.51        0.99        0.71      0.57
-+++         0.63        0.55        0.66        0.51      0.52
+---         0.40        0.68        0.70        0.40      0.65
+--+         0.29        0.35        0.46        0.18      0.15
+-+-         0.70        0.58        0.54        0.64      0.67
+-++         0.45        0.79        0.73        0.76      0.65
++--         0.48        0.20        0.76        0.36      0.36
++-+         0.60        0.59        0.75        0.66      0.65
+++-         0.72        0.75        0.92        0.66      0.70








     Control Enzalutamide Abiraterone Carboplatin Cabazitaxel Docetaxel
----     115           77          23          17          54        72
---+      17            9          21           5          11         5
--+-      68           46          37          29          15        12
--++      31           18          24          10          15        18
-+--      21           16          13           2          11         7
-+-+      15            5           5           3           7        10
-++-       5            3           3           4           2         0
-+++       0            2           1           1           1         0
+---       7            3          11           7           4        10
+--+      11            7          14           4           5         4
+-+-       2            4           1           1           0         1
+-++      10            6           8           8           7         4
++--      12            4           4           5           6         5
++-+       4            2           1           2           0         0
+++-       3            2           2           3           0         0
            Control Enzalutamide Abiraterone Carboplatin Cabazitaxel Docetaxel
all             321          204         168         101         138       148
TP53- & AR-     168          107          62          27          83        94
TP53+           119           81          76          56          40        35
DRD+             60           34          29          20          27        22
TEfus+           88           49          74          33          46        41





Number of events, PT, and rate by subtype (over time)




Number of events, PT, and rate by signature (over time)



Analysis of final simulated results

Sample of 10 rows:

       id          trt         trt2 line subtype delta month0     time_m all TP53- & AR- TP53+ DRD+ TEfus+
1052  941 Enzalutamide Enzalutamide    1    ----     1     31  0.2072555   1           1     0    0      0
292   266    Docetaxel    Docetaxel    1    ----     1      8 11.9994481   1           1     0    0      0
1148 1025      Control    Docetaxel    1    --+-     0     34  2.0000000   1           0     1    0      0
180   161  Abiraterone  Abiraterone    1    --+-     1      5 18.7972708   1           0     1    0      0
302   276      Control    Docetaxel    1    ----     1      9  1.7135962   1           1     0    0      0
249   226  Abiraterone  Abiraterone    1    ----     1      7 12.2799178   1           1     0    0      0
207   184      Control    Docetaxel    1    ----     1      6  3.1424093   1           1     0    0      0
547   497  Abiraterone  Abiraterone    1    ----     1     16  2.2093076   1           1     0    0      0
674   610 Enzalutamide Enzalutamide    1    ----     1     20  4.2736411   1           1     0    0      0
1167 1044  Carboplatin  Carboplatin    1    +--+     1     34  0.4249596   1           0     0    0      1

Descriptives

Mean number of progressions and follow-up time:

$all
# A tibble: 6 x 4
  trt          progressions    PT  rate
  <fct>               <dbl> <dbl> <dbl>
1 Control               306 2183. 0.140
2 Enzalutamide          182 1388. 0.131
3 Abiraterone           156 1127. 0.138
4 Carboplatin            98  822. 0.119
5 Cabazitaxel           109  838. 0.130
6 Docetaxel             134  979. 0.137

$`TP53- & AR-`
# A tibble: 6 x 4
  trt          progressions    PT  rate
  <fct>               <dbl> <dbl> <dbl>
1 Control               157 1128. 0.139
2 Enzalutamide           91  731. 0.124
3 Abiraterone            66  432. 0.153
4 Carboplatin            30  182. 0.165
5 Cabazitaxel            65  573. 0.113
6 Docetaxel              81  640. 0.127

$`TP53+`
# A tibble: 6 x 4
  trt          progressions    PT  rate
  <fct>               <dbl> <dbl> <dbl>
1 Control               119  811. 0.147
2 Enzalutamide           76  557. 0.136
3 Abiraterone            60  465. 0.129
4 Carboplatin            56  470. 0.119
5 Cabazitaxel            33  213. 0.155
6 Docetaxel              37  225. 0.165

$`DRD+`
# A tibble: 6 x 4
  trt          progressions    PT   rate
  <fct>               <dbl> <dbl>  <dbl>
1 Control                61  374. 0.163 
2 Enzalutamide           25  220. 0.114 
3 Abiraterone            27  136. 0.199 
4 Carboplatin            16  332. 0.0481
5 Cabazitaxel            22  205. 0.108 
6 Docetaxel              20  155. 0.129 

$`TEfus+`
# A tibble: 6 x 4
  trt          progressions    PT  rate
  <fct>               <dbl> <dbl> <dbl>
1 Control                81  583. 0.139
2 Enzalutamide           49  284. 0.173
3 Abiraterone            66  530. 0.125
4 Carboplatin            32  266. 0.120
5 Cabazitaxel            38  252. 0.151
6 Docetaxel              39  249. 0.157

Kaplan-Meier results:

$all
Call: survfit(formula = Surv(time_m, delta) ~ trt, data = d)

                   n events median 0.95LCL 0.95UCL
trt=Control      367    306   4.86    4.18    5.68
trt=Enzalutamide 228    182   5.17    4.27    6.48
trt=Abiraterone  193    156   5.28    4.45    6.46
trt=Carboplatin  113     98   5.67    4.17    7.44
trt=Cabazitaxel  150    109   5.10    4.45    6.31
trt=Docetaxel    160    134   5.23    4.12    6.25

$`TP53- & AR-`
Call: survfit(formula = Surv(time_m, delta) ~ trt, data = d)

                   n events median 0.95LCL 0.95UCL
trt=Control      191    157   5.18    4.32    6.75
trt=Enzalutamide 119     91   5.50    3.79    8.09
trt=Abiraterone   73     66   5.32    3.61    8.48
trt=Carboplatin   31     30   4.09    1.43    7.49
trt=Cabazitaxel   93     65   5.39    4.69    8.72
trt=Docetaxel    102     81   5.55    4.12    7.50

$`TP53+`
Call: survfit(formula = Surv(time_m, delta) ~ trt, data = d)

                   n events median 0.95LCL 0.95UCL
trt=Control      139    119   4.07    3.71    5.64
trt=Enzalutamide  91     76   5.06    3.49    6.60
trt=Abiraterone   85     60   5.07    4.58    6.68
trt=Carboplatin   62     56   5.67    4.12    8.12
trt=Cabazitaxel   42     33   5.24    3.08    6.78
trt=Docetaxel     39     37   5.23    3.74    7.21

$`DRD+`
Call: survfit(formula = Surv(time_m, delta) ~ trt, data = d)

                  n events median 0.95LCL 0.95UCL
trt=Control      71     61   4.14    2.99    6.09
trt=Enzalutamide 36     25   5.50    3.10    9.26
trt=Abiraterone  32     27   3.50    2.47    6.67
trt=Carboplatin  20     16  18.40    8.83      NA
trt=Cabazitaxel  32     22   5.10    3.19   17.58
trt=Docetaxel    26     20   4.15    2.74   10.03

$`TEfus+`
Call: survfit(formula = Surv(time_m, delta) ~ trt, data = d)

                  n events median 0.95LCL 0.95UCL
trt=Control      99     81   4.94    3.90    6.77
trt=Enzalutamide 56     49   3.86    2.62    6.48
trt=Abiraterone  87     66   6.44    5.02    8.73
trt=Carboplatin  39     32   6.55    3.06   10.24
trt=Cabazitaxel  47     38   5.24    2.75    9.81
trt=Docetaxel    43     39   4.56    3.57    6.70